Zinc in PDB 8emq: Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera.

Other elements in 8emq:

The structure of Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera. also contains other interesting chemical elements:

Iron (Fe) 6 atoms

Zinc Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 24;

Binding sites:

The binding sites of Zinc atom in the Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera. (pdb code 8emq). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 24 binding sites of Zinc where determined in the Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera., PDB code: 8emq:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 24 in 8emq

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Zinc binding site 1 out of 24 in the Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn201

b:30.0
occ:1.00
 O A:HOH381 2.0 30.0 1.0
OE1 A:GLU62 2.1 41.3 1.0
O A:HOH317 2.2 30.0 1.0
ND1 A:HIS65 2.3 22.8 1.0
OE2 A:GLU27 2.4 33.9 1.0
CD A:GLU62 2.8 36.3 1.0
OE2 A:GLU62 3.0 67.2 1.0
CE1 A:HIS65 3.1 28.8 1.0
CG A:HIS65 3.4 23.2 1.0
CD A:GLU27 3.4 32.6 1.0
OE1 A:GLN141 3.7 39.5 1.0
OE1 A:GLU27 3.7 32.2 1.0
CB A:HIS65 3.8 20.1 1.0
CG A:GLU62 4.2 22.0 1.0
O A:HOH400 4.3 30.0 1.0
NE2 A:HIS65 4.3 26.9 1.0
CA A:GLU62 4.3 17.4 1.0
O A:HOH352 4.4 30.0 1.0
CG1 A:VAL110 4.4 22.8 1.0
CB A:GLU62 4.4 18.5 1.0
CD2 A:HIS65 4.5 22.5 1.0
CD A:GLN141 4.6 26.4 1.0
CG A:GLU27 4.8 24.1 1.0
OE1 A:GLU107 4.8 45.3 1.0

Zinc binding site 2 out of 24 in 8emq

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Zinc binding site 2 out of 24 in the Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn202

b:30.0
occ:1.00
 O B:HOH330 2.0 30.0 1.0
OE1 B:GLU62 2.1 41.3 1.0
OE2 B:GLU27 2.2 33.9 1.0
O B:HOH317 2.2 30.0 1.0
ND1 B:HIS65 2.3 22.8 1.0
CD B:GLU62 2.8 36.3 1.0
OE2 B:GLU62 3.0 67.2 1.0
CE1 B:HIS65 3.1 28.8 1.0
CD B:GLU27 3.2 32.6 1.0
CG B:HIS65 3.4 23.2 1.0
OE1 B:GLU27 3.6 32.2 1.0
OE1 B:GLN141 3.7 39.5 1.0
CB B:HIS65 3.8 20.1 1.0
CG B:GLU62 4.2 22.0 1.0
O B:HOH400 4.3 30.0 1.0
NE2 B:HIS65 4.3 26.9 1.0
CA B:GLU62 4.3 17.4 1.0
O B:HOH353 4.4 30.0 1.0
CG1 B:VAL110 4.4 22.8 1.0
CB B:GLU62 4.4 18.5 1.0
CD2 B:HIS65 4.5 22.5 1.0
CG B:GLU27 4.5 24.1 1.0
CD B:GLN141 4.6 26.4 1.0
OE1 B:GLU107 4.8 45.3 1.0
CB B:GLU27 5.0 18.7 1.0

Zinc binding site 3 out of 24 in 8emq

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Zinc binding site 3 out of 24 in the Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn201

b:30.0
occ:1.00
 O C:HOH330 2.0 30.0 1.0
OE1 C:GLU62 2.1 41.3 1.0
OE2 C:GLU27 2.2 33.9 1.0
O C:HOH317 2.2 30.0 1.0
ND1 C:HIS65 2.3 22.8 1.0
CD C:GLU62 2.8 36.3 1.0
OE2 C:GLU62 3.0 67.2 1.0
CE1 C:HIS65 3.1 28.8 1.0
CD C:GLU27 3.2 32.6 1.0
CG C:HIS65 3.4 23.2 1.0
OE1 C:GLU27 3.6 32.2 1.0
OE1 C:GLN141 3.7 39.5 1.0
CB C:HIS65 3.8 20.1 1.0
CG C:GLU62 4.2 22.0 1.0
O C:HOH400 4.3 30.0 1.0
NE2 C:HIS65 4.3 26.9 1.0
CA C:GLU62 4.3 17.4 1.0
O C:HOH353 4.4 30.0 1.0
CG1 C:VAL110 4.4 22.8 1.0
CB C:GLU62 4.4 18.5 1.0
CD2 C:HIS65 4.5 22.5 1.0
CG C:GLU27 4.5 24.1 1.0
CD C:GLN141 4.6 26.4 1.0
OE1 C:GLU107 4.8 45.3 1.0
CB C:GLU27 5.0 18.7 1.0

Zinc binding site 4 out of 24 in 8emq

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Zinc binding site 4 out of 24 in the Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn201

b:30.0
occ:1.00
 O D:HOH330 2.0 30.0 1.0
OE1 D:GLU62 2.1 41.3 1.0
OE2 D:GLU27 2.2 33.9 1.0
O D:HOH317 2.2 30.0 1.0
ND1 D:HIS65 2.3 22.8 1.0
CD D:GLU62 2.8 36.3 1.0
OE2 D:GLU62 3.0 67.2 1.0
CE1 D:HIS65 3.1 28.8 1.0
CD D:GLU27 3.2 32.6 1.0
CG D:HIS65 3.4 23.2 1.0
OE1 D:GLU27 3.6 32.2 1.0
OE1 D:GLN141 3.7 39.5 1.0
CB D:HIS65 3.8 20.1 1.0
CG D:GLU62 4.2 22.0 1.0
O D:HOH400 4.3 30.0 1.0
NE2 D:HIS65 4.3 26.9 1.0
CA D:GLU62 4.3 17.4 1.0
O D:HOH353 4.4 30.0 1.0
CG1 D:VAL110 4.4 22.8 1.0
CB D:GLU62 4.4 18.5 1.0
CD2 D:HIS65 4.5 22.5 1.0
CG D:GLU27 4.5 24.1 1.0
CD D:GLN141 4.6 26.4 1.0
OE1 D:GLU107 4.8 45.3 1.0
CB D:GLU27 5.0 18.7 1.0

Zinc binding site 5 out of 24 in 8emq

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Zinc binding site 5 out of 24 in the Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera. within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn202

b:30.0
occ:1.00
 O E:HOH330 2.0 30.0 1.0
OE1 E:GLU62 2.1 41.3 1.0
OE2 E:GLU27 2.2 33.9 1.0
O E:HOH317 2.2 30.0 1.0
ND1 E:HIS65 2.3 22.8 1.0
CD E:GLU62 2.8 36.3 1.0
OE2 E:GLU62 3.0 67.2 1.0
CE1 E:HIS65 3.1 28.8 1.0
CD E:GLU27 3.2 32.6 1.0
CG E:HIS65 3.4 23.2 1.0
OE1 E:GLU27 3.6 32.2 1.0
OE1 E:GLN141 3.7 39.5 1.0
CB E:HIS65 3.8 20.1 1.0
CG E:GLU62 4.2 22.0 1.0
O E:HOH400 4.3 30.0 1.0
NE2 E:HIS65 4.3 26.9 1.0
CA E:GLU62 4.3 17.4 1.0
O E:HOH353 4.4 30.0 1.0
CG1 E:VAL110 4.4 22.8 1.0
CB E:GLU62 4.4 18.5 1.0
CD2 E:HIS65 4.5 22.5 1.0
CG E:GLU27 4.5 24.1 1.0
CD E:GLN141 4.6 26.4 1.0
OE1 E:GLU107 4.8 45.3 1.0
CB E:GLU27 5.0 18.7 1.0

Zinc binding site 6 out of 24 in 8emq

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Zinc binding site 6 out of 24 in the Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera. within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn201

b:30.0
occ:1.00
 O F:HOH330 2.0 30.0 1.0
OE1 F:GLU62 2.1 41.3 1.0
OE2 F:GLU27 2.2 33.9 1.0
O F:HOH317 2.2 30.0 1.0
ND1 F:HIS65 2.3 22.8 1.0
CD F:GLU62 2.8 36.3 1.0
OE2 F:GLU62 3.0 67.2 1.0
CE1 F:HIS65 3.1 28.8 1.0
CD F:GLU27 3.2 32.6 1.0
CG F:HIS65 3.4 23.2 1.0
OE1 F:GLU27 3.6 32.2 1.0
OE1 F:GLN141 3.7 39.5 1.0
CB F:HIS65 3.8 20.1 1.0
CG F:GLU62 4.2 22.0 1.0
O F:HOH400 4.3 30.0 1.0
NE2 F:HIS65 4.3 26.9 1.0
CA F:GLU62 4.3 17.4 1.0
O F:HOH353 4.4 30.0 1.0
CG1 F:VAL110 4.4 22.8 1.0
CB F:GLU62 4.4 18.5 1.0
CD2 F:HIS65 4.5 22.5 1.0
CG F:GLU27 4.5 24.1 1.0
CD F:GLN141 4.6 26.4 1.0
OE1 F:GLU107 4.8 45.3 1.0
CB F:GLU27 5.0 18.7 1.0

Zinc binding site 7 out of 24 in 8emq

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Zinc binding site 7 out of 24 in the Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera. within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Zn201

b:30.0
occ:1.00
 O G:HOH330 2.0 30.0 1.0
OE1 G:GLU62 2.1 41.3 1.0
OE2 G:GLU27 2.2 33.9 1.0
O G:HOH317 2.2 30.0 1.0
ND1 G:HIS65 2.3 22.8 1.0
CD G:GLU62 2.8 36.3 1.0
OE2 G:GLU62 3.0 67.2 1.0
CE1 G:HIS65 3.1 28.8 1.0
CD G:GLU27 3.2 32.6 1.0
CG G:HIS65 3.4 23.2 1.0
OE1 G:GLU27 3.6 32.2 1.0
OE1 G:GLN141 3.7 39.5 1.0
CB G:HIS65 3.8 20.1 1.0
CG G:GLU62 4.2 22.0 1.0
O G:HOH400 4.3 30.0 1.0
NE2 G:HIS65 4.3 26.9 1.0
CA G:GLU62 4.3 17.4 1.0
O G:HOH353 4.4 30.0 1.0
CG1 G:VAL110 4.4 22.8 1.0
CB G:GLU62 4.4 18.5 1.0
CD2 G:HIS65 4.5 22.5 1.0
CG G:GLU27 4.5 24.1 1.0
CD G:GLN141 4.6 26.4 1.0
OE1 G:GLU107 4.8 45.3 1.0
CB G:GLU27 5.0 18.7 1.0

Zinc binding site 8 out of 24 in 8emq

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Zinc binding site 8 out of 24 in the Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera. within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn201

b:30.0
occ:1.00
 O H:HOH330 2.0 30.0 1.0
OE1 H:GLU62 2.1 41.3 1.0
OE2 H:GLU27 2.2 33.9 1.0
O H:HOH317 2.2 30.0 1.0
ND1 H:HIS65 2.3 22.8 1.0
CD H:GLU62 2.8 36.3 1.0
OE2 H:GLU62 3.0 67.2 1.0
CE1 H:HIS65 3.1 28.8 1.0
CD H:GLU27 3.2 32.6 1.0
CG H:HIS65 3.4 23.2 1.0
OE1 H:GLU27 3.6 32.2 1.0
OE1 H:GLN141 3.7 39.5 1.0
CB H:HIS65 3.8 20.1 1.0
CG H:GLU62 4.2 22.0 1.0
O H:HOH400 4.3 30.0 1.0
NE2 H:HIS65 4.3 26.9 1.0
CA H:GLU62 4.3 17.4 1.0
O H:HOH353 4.4 30.0 1.0
CG1 H:VAL110 4.4 22.8 1.0
CB H:GLU62 4.4 18.5 1.0
CD2 H:HIS65 4.5 22.5 1.0
CG H:GLU27 4.5 24.1 1.0
CD H:GLN141 4.6 26.4 1.0
OE1 H:GLU107 4.8 45.3 1.0
CB H:GLU27 5.0 18.7 1.0

Zinc binding site 9 out of 24 in 8emq

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Zinc binding site 9 out of 24 in the Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera. within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Zn202

b:30.0
occ:1.00
 O I:HOH330 2.0 30.0 1.0
OE1 I:GLU62 2.1 41.3 1.0
OE2 I:GLU27 2.2 33.9 1.0
O I:HOH317 2.2 30.0 1.0
ND1 I:HIS65 2.3 22.8 1.0
CD I:GLU62 2.8 36.3 1.0
OE2 I:GLU62 3.0 67.2 1.0
CE1 I:HIS65 3.1 28.8 1.0
CD I:GLU27 3.2 32.6 1.0
CG I:HIS65 3.4 23.2 1.0
OE1 I:GLU27 3.6 32.2 1.0
OE1 I:GLN141 3.7 39.5 1.0
CB I:HIS65 3.8 20.1 1.0
CG I:GLU62 4.2 22.0 1.0
O I:HOH400 4.3 30.0 1.0
NE2 I:HIS65 4.3 26.9 1.0
CA I:GLU62 4.3 17.4 1.0
O I:HOH353 4.4 30.0 1.0
CG1 I:VAL110 4.4 22.8 1.0
CB I:GLU62 4.4 18.5 1.0
CD2 I:HIS65 4.5 22.5 1.0
CG I:GLU27 4.5 24.1 1.0
CD I:GLN141 4.6 26.4 1.0
OE1 I:GLU107 4.8 45.3 1.0
CB I:GLU27 5.0 18.7 1.0

Zinc binding site 10 out of 24 in 8emq

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Zinc binding site 10 out of 24 in the Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Mouse Apoferritin Heavy Chain with Zinc Determined Using Single- Particle Cryo-Em with Apollo Camera. within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn202

b:30.0
occ:1.00
 O J:HOH330 2.0 30.0 1.0
OE1 J:GLU62 2.1 41.3 1.0
OE2 J:GLU27 2.2 33.9 1.0
O J:HOH317 2.2 30.0 1.0
ND1 J:HIS65 2.3 22.8 1.0
CD J:GLU62 2.8 36.3 1.0
OE2 J:GLU62 3.0 67.2 1.0
CE1 J:HIS65 3.1 28.8 1.0
CD J:GLU27 3.2 32.6 1.0
CG J:HIS65 3.4 23.2 1.0
OE1 J:GLU27 3.6 32.2 1.0
OE1 J:GLN141 3.7 39.5 1.0
CB J:HIS65 3.8 20.1 1.0
CG J:GLU62 4.2 22.0 1.0
O J:HOH400 4.3 30.0 1.0
NE2 J:HIS65 4.3 26.9 1.0
CA J:GLU62 4.3 17.4 1.0
O J:HOH353 4.4 30.0 1.0
CG1 J:VAL110 4.4 22.8 1.0
CB J:GLU62 4.4 18.5 1.0
CD2 J:HIS65 4.5 22.5 1.0
CG J:GLU27 4.5 24.1 1.0
CD J:GLN141 4.6 26.4 1.0
OE1 J:GLU107 4.8 45.3 1.0
CB J:GLU27 5.0 18.7 1.0

Reference:

R.Peng, X.Fu, J.H.Mendez, P.S.Randolph, B.E.Bammes, S.M.Stagg. Characterizing the Resolution and Throughput of the Apollo Direct Electron Detector J Struct Biol X 2022.
ISSN: ESSN 2590-1524
DOI: 10.1016/J.YJSBX.2022.100080
Page generated: Sat Apr 8 08:41:32 2023

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